Pareto optimality in organelle energy metabolism analysis

IEEE/ACM Transactions on Computational Biology and Bioinformatics
Claudio AngioneGiuseppe Nicosia

Abstract

In low and high eukaryotes, energy is collected or transformed in compartments, the organelles. The rich variety of size, characteristics, and density of the organelles makes it difficult to build a general picture. In this paper, we make use of the Pareto-front analysis to investigate the optimization of energy metabolism in mitochondria and chloroplasts. Using the Pareto optimality principle, we compare models of organelle metabolism on the basis of single- and multiobjective optimization, approximation techniques (the Bayesian Automatic Relevance Determination), robustness, and pathway sensitivity analysis. Finally, we report the first analysis of the metabolic model for the hydrogenosome of Trichomonas vaginalis, which is found in several protozoan parasites. Our analysis has shown the importance of the Pareto optimality for such comparison and for insights into the evolution of the metabolism from cytoplasmic to organelle bound, involving a model order reduction. We report that Pareto fronts represent an asymptotic analysis useful to describe the metabolism of an organism aimed at maximizing concurrently two or more metabolite concentrations.

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Citations

Mar 11, 2016·BMC Bioinformatics·Claudio AngionePietro Lió
Sep 22, 2015·IEEE Transactions on Biomedical Circuits and Systems·Andrea PatanèGiuseppe Nicosia
Sep 17, 2015·PloS One·Claudio AngioneGiuseppe Nicosia
Mar 30, 2017·ACS Synthetic Biology·Irene Otero-Muras, Julio R Banga
Oct 21, 2015·Scientific Reports·Claudio Angione, Pietro Lió
Sep 21, 2018·Frontiers in Microbiology·Sébastien Bontemps-GalloFrank C Gherardini

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